Strain identifier
BacDive ID: 17778
Type strain: 
Species: Acetomicrobium thermoterrenum
Strain Designation: RWcit2
Strain history: <- R. J. Menes, Universidad de la República, Montevideo, Uruguay; ACM 5076 <- ACM <- G. Rees, University of Canberra, Belconnen, Australian Capital Territory, Australia; RWcit2
NCBI tax ID(s): 1120987 (strain), 1120986 (species)
version 9.2 (current version)
General
@ref: 5065
BacDive-ID: 17778
DSM-Number: 13490
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, chemoorganotroph, thermophilic, Gram-negative, motile, rod-shaped
description: Acetomicrobium thermoterrenum RWcit2 is an anaerobe, chemoorganotroph, thermophilic bacterium that was isolated from production fluid from oil field.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1120986 | species |
| 1120987 | strain |
strain history
- @ref: 5065
- history: <- R. J. Menes, Universidad de la República, Montevideo, Uruguay; ACM 5076 <- ACM <- G. Rees, University of Canberra, Belconnen, Australian Capital Territory, Australia; RWcit2
doi: 10.13145/bacdive17778.20241212.9.2
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/synergistota
- domain: Bacteria
- phylum: Synergistota
- class: Synergistia
- order: Synergistales
- family: Synergistaceae
- genus: Acetomicrobium
- species: Acetomicrobium thermoterrenum
- full scientific name: Acetomicrobium thermoterrenum (Rees et al. 1997) Ben Hania et al. 2016
synonyms
- @ref: 20215
- synonym: Anaerobaculum thermoterrenum
@ref: 5065
domain: Bacteria
phylum: Synergistetes
class: Synergistia
order: Synergistales
family: Synergistaceae
genus: Acetomicrobium
species: Acetomicrobium thermoterrenum
full scientific name: Acetomicrobium thermoterrenum (Rees et al. 1997) Ben Hania et al. 2016
strain designation: RWcit2
type strain: yes
Morphology
cell morphology
- @ref: 43698
- gram stain: negative
- cell shape: rod-shaped
- motility: yes
Culture and growth conditions
culture medium
- @ref: 5065
- name: ANAEROBACULUM MEDIUM (DSMZ Medium 104a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/104a
- composition: Name: ANAEROBACULUM MEDIUM (DSMZ Medium 104a) Composition: Yeast extract 10.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l Na2S2O3 x 5 H2O 2.5 g/l D-Glucose 1.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 5065 | positive | growth | 50 |
| 43698 | positive | growth | 28-60 |
| 43698 | positive | optimum | 55 |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 43698 | positive | growth | 5.5-8.6 | alkaliphile |
| 43698 | positive | optimum | 7-7.6 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 5065 | anaerobe | |
| 43698 | obligate anaerobe | |
| 69480 | anaerobe | 90.69 |
nutrition type
- @ref: 43698
- type: chemoorganotroph
spore formation
- @ref: 43698
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 43698 | NaCl | positive | growth | 0-20 g/L |
| 43698 | NaCl | positive | optimum | 10 g/L |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 43698 | 17306 | maltose | - | assimilation |
| 43698 | 15824 | D-fructose | + | assimilation |
| 43698 | 17634 | D-glucose | + | assimilation |
| 43698 | 17754 | glycerol | + | assimilation |
| 43698 | 30924 | L-tartrate | + | assimilation |
| 43698 | 37684 | mannose | + | assimilation |
| 43698 | 15361 | pyruvate | + | assimilation |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 43698 | catalase | - | 1.11.1.6 |
| 43698 | cytochrome oxidase | - | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 5065 | production fluid from oil field | Utah, Redwash oil field | USA | USA | North America |
| 43698 | Production water of a petroleum reservoir from the Redwash oilfield | Utah | USA | USA | North America |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Industrial | #Engineered product |
| #Engineered | #Built environment | #Container (Reservoir) |
| #Engineered | #Industrial | #Oil reservoir |
| #Engineered | #Waste | #Wastewater |
taxonmaps
- @ref: 69479
- File name: preview.99_6502.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15969;96_645;97_748;98_4796;99_6502&stattab=map
- Last taxonomy: Acetomicrobium
- 16S sequence: U50711
- Sequence Identity:
- Total samples: 265
- soil counts: 9
- aquatic counts: 199
- animal counts: 38
- plant counts: 19
Safety information
risk assessment
- @ref: 5065
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 5065
- description: Acetomicrobium thermoterrenum strain RWcit 16S ribosomal RNA gene, partial sequence
- accession: U50711
- length: 1526
- database: nuccore
- NCBI tax ID: 1120986
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acetomicrobium thermoterrenum DSM 13490 | GCA_900107215 | scaffold | ncbi | 1120987 |
| 66792 | Anaerobaculum sp. S15 | 2544872.3 | wgs | patric | 2529858 |
| 66792 | Anaerobaculum thermoterrenum DSM 13490 | 1120987.3 | wgs | patric | 1120987 |
| 66792 | Acetomicrobium thermoterrenum DSM 13490 | 2599185146 | draft | img | 1120987 |
GC content
- @ref: 5065
- GC-content: 44
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | yes | 87 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 86.686 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 90.69 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 92.757 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 82.167 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | yes | 67.921 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 58.932 | no |
External links
@ref: 5065
culture collection no.: DSM 13490, ACM 5076
straininfo link
- @ref: 86769
- straininfo: 49477
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Metabolism | 8995817 | Anaerobaculum thermoterrenum gen. nov., sp. nov., a novel, thermophilic bacterium which ferments citrate. | Rees GN, Patel BK, Grassia GS, Sheehy AJ | Int J Syst Bacteriol | 10.1099/00207713-47-1-150 | 1997 | Bacteria, Anaerobic/*classification/growth & development/isolation & purification/metabolism, Bacteriological Techniques, Base Composition, Carbohydrate Metabolism, Citrates/metabolism, Culture Media/metabolism, Cystine/metabolism, Fumarates/metabolism, Hot Temperature, Hydrogen-Ion Concentration, Malates/metabolism, Molecular Sequence Data, Phylogeny, Proteins/metabolism, Pyruvates/metabolism, RNA, Ribosomal, 16S/genetics, Sodium Chloride/metabolism, Sulfur/metabolism, Tartrates/metabolism, Thiosulfates/metabolism, Water Microbiology | Phylogeny |
| Phylogeny | 11837298 | Anaerobaculum mobile sp. nov., a novel anaerobic, moderately thermophilic, peptide-fermenting bacterium that uses crotonate as an electron acceptor, and emended description of the genus Anaerobaculum. | Menes RJ, Muxi L | Int J Syst Evol Microbiol | 10.1099/00207713-52-1-157 | 2002 | Crotonates/*metabolism, DNA, Ribosomal/analysis, Electron Transport, Fermentation, Gram-Negative Anaerobic Bacteria/*classification/*genetics/isolation & purification/physiology, Industrial Waste, Molecular Sequence Data, Peptides/*metabolism, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Temperature, Water Microbiology | Metabolism |
| Phylogeny | 21602364 | Description of Anaerobaculum hydrogeniformans sp. nov., an anaerobe that produces hydrogen from glucose, and emended description of the genus Anaerobaculum. | Maune MW, Tanner RS | Int J Syst Evol Microbiol | 10.1099/ijs.0.024349-0 | 2011 | Alaska, Bacteria, Anaerobic/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Extraction and Processing Industry, Fatty Acids/chemistry, Fermentation, Glucose/metabolism, Hydrogen/*metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Petroleum, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Waste Water/*microbiology, Water Microbiology | Metabolism |
| Phylogeny | 26791251 | Reclassification of Anaerobaculum mobile, Anaerobaculum thermoterrenum, Anaerobaculum hydrogeniformans as Acetomicrobium mobile comb. nov., Acetomicrobium thermoterrenum comb. nov. and Acetomicrobium hydrogeniformans comb. nov., respectively, and emendation of the genus Acetomicrobium. | Hania WB, Bouanane-Darenfed A, Cayol JL, Ollivier B, Fardeau ML | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000910 | 2016 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 5065 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13490) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-13490 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 43698 | Wajdi Ben Hania, Amel Bouanane-Darenfed, Jean-Luc Cayol, Bernard Ollivier, Marie-Laure Fardeau | 10.1099/ijsem.0.000910 | Reclassification of Anaerobaculum mobile, Anaerobaculum thermoterrenum, Anaerobaculum hydrogeniformans as Acetomicrobium mobile comb. nov., Acetomicrobium thermoterrenum comb. nov. and Acetomicrobium hydrogeniformans comb. nov., respectively, and emendation of the genus Acetomicrobium | IJSEM 66: 1506-1509 2016 | 26791251 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 86769 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49477.1 | StrainInfo: A central database for resolving microbial strain identifiers |